RetrogeneDB ID: retro_ocun_760

Retrocopy location

• Organism: Rabbit (Oryctolagus cuniculus)
• Coordinates: 14:82561598..82561928(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: UBL3
• Ensembl ID: ENSOCUG00000001957
• Aliases: None
• Description: ubiquitin-like 3 [Source:HGNC Symbol;Acc:12504]

Sequence

>retro_ocun_760
CCCGGGGATATGATAAATCTGCGCCTCATCTTGGTAAGCGGAAAAACAAAAGAGTTCCTGTTTTCTCCTAAGGATTCTGC
TTCCGCCATTGCAAAGCGTGTGTATGACAATTGGCCAGTGGACTCGGAAGAAGCACAGGTCAGCAGTCCAACAAGTATTC
TGTTCTATCAAGGACGATTCCTACATGGAAATGTCTCATTAGGAACATTGAAACTTCCTTTTGGCAAGATGACAGTGATG
CATCTGGTGGCCAGAGAGACGCTTTGGGAGCCAAACTCCCAGGGTCAGAGGAACCGTGAGAAGACGGGCGAGAGTGATTG
CTGTGTGATC

Alignment

ORF - retro_ocun_760 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.68 %
• Parental protein coverage: 94.87 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PADMINLRLILVSGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLHGNVTLGA
          P.DMINLRLILVSGKTKEFLFSP.DSAS.IAK.VYDNWP.D.EE.QVSSP....L.YQGRFLHGNV.LG.
Retrocopy PGDMINLRLILVSGKTKEFLFSPKDSASAIAKRVYDNWPVDSEEAQVSSPTSI-LFYQGRFLHGNVSLGT

Parental  LKLPFGKTTVMHLVARETLPEPNSQGQRNREKTGESNCCVI
          LKLPFGK.TVMHLVARETL.EPNSQGQRNREKTGES.CCVI
Retrocopy LKLPFGKMTVMHLVARETLWEPNSQGQRNREKTGESDCCVI

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP017611_brain	0.00 RPM	38.52 RPM
SRP017611_kidney	0.00 RPM	28.38 RPM
SRP017611_liver	0.00 RPM	19.11 RPM

ChIP-Seq

Oryctolagus cuniculus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ocun_760 retrocopy.

TSS

Oryctolagus cuniculus was not studied using FANTOM5 data.

Lab

retro_ocun_760 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ocun_760 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Oryctolagus cuniculus	ENSOCUG00000001957	1 retrocopy	retro_ocun_760 ,
Sorex araneus	ENSSARG00000001173	2 retrocopies	retro_sara_544, retro_sara_752,